Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 289 of 325
Found at i:92467913 original size:86 final size:85
Alignment explanation
Indices: 92467751--92467956 Score: 202
Period size: 86 Copynumber: 2.4 Consensus size: 85
92467741 ACCTAGATGA
* * * * * *
92467751 GATTACATGTAAGACCATGTCTAGGACATTGGCATTGTACTGTGATTATGTGTAAGACCATCTTT
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATCGTAATGCGATTATGTGTAAAACCATCTCT
* * *
92467816 GGGATATTGGCATC-ATTATAC
65 AGGACAGTGGCATCGA-TATAC
* * *
92467837 GATTACATGTAAGACCATGTCTGGGACATCGGCATCGTTAAT-CGATTTTGTGTAAAACCCTGTC
1 GATTACATGTAAGACCATGTCTGGGACAT-GGCATCG-TAATGCGATTATGTGTAAAACCATCTC
**
92467901 TAGGACAGTGGCATCGATATGT
64 TAGGACAGTGGCATCGATATAC
* *
92467923 G-TTAACATGTAAGACCATATCTGGGATATGGCAT
1 GATT-ACATGTAAGACCATGTCTGGGACATGGCAT
92467957 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
85 8 0.08
86 88 0.88
87 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (85 bp):
GATTACATGTAAGACCATGTCTGGGACATGGCATCGTAATGCGATTATGTGTAAAACCATCTCTA
GGACAGTGGCATCGATATAC
Found at i:92474504 original size:278 final size:277
Alignment explanation
Indices: 92474005--92474808 Score: 1002
Period size: 278 Copynumber: 2.9 Consensus size: 277
92473995 TTGTGGAAGG
* * * * * *
92474005 TTCAACCTATTTTTCCTCTTATAACCCTCAAAGATTGGTTTGGCTTCTTGCATCCTTCGAACGAT
1 TTCAACCCATTTTTCCTCTCATAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
* * * **
92474070 CCATGTCGAATCGAGTAGCACGTTCTCGCTTAGATGCT-GTTTTGTCTTTATCGCTCTCTTTTGT
66 CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATG-TGGTTTTGTCTTTATCGCTCTCTTTCAT
* * * ** **
92474134 TTCTGATTCCCTATAAGATATTCCACACTCAATTTTGAGATCGGAAACTTGTTTGGTTGTAAATC
130 TTTTGATTCCCTATAAGATATTCCACACTCGATTCTGAGATCAAAAACTTACTTGGTTGTAAATC
* ** ** *
92474199 ATGACTCGATCGTCCCATCAACACCTTCATTTGTCAGCATAAAACTGTCACTATGTATGGGAAAA
195 ACGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTATGGGAAAA
*
92474264 ATAGTTTCACCTCATTTTT
260 ATAGTTCCACCTCA-TTTT
* * **
92474283 TTCAACCCGTTTTTCCTCTCATAATCTTCAAATATTGGTTCAACTTCTTGCATCCATCGAACGAT
1 TTCAACCCATTTTTCCTCTCATAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
* * * * * *
92474348 CCATTTCGAATCAAGTAACATATTCTTGCCTAGATGTGGTTTTGTCTTCATGGCTCTCTTTCATT
66 CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCATT
*
92474413 TTTGATTCCCTATAAGATATTCCACACTCGGTTCTGAGATCAAAAACTTACTTGGTTGTAAATCA
131 TTTGATTCCCTATAAGATATTCCACACTCGATTCTGAGATCAAAAACTTACTTGGTTGTAAATCA
* * * * * * * *
92474478 CAACTCAATCGTCCCATCGGCACCTTCATTTTTCTGCATCAGGCTATCACTAAGTGTGGGAAAAG
196 CGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTATGGGAAAAA
92474543 TAGTTCCACCTCATTTT
261 TAGTTCCACCTCATTTT
* * * * * * *
92474560 TTCAATCCATTTTTCCTCGCAGAATCTTTAAAGATTGATTTGACTTCTTGCAT-CATTGAATGAT
1 TTCAACCCATTTTTCCTCTCATAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
* * * * *
92474624 CTATTTTGAATCGAGTAGCGCATTCTCACCTAGATGTGGTTTTGTCTTTATTGCTCTCTTTCATT
66 CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCATT
* *
92474689 TTTGATTCCCTATAAGATATTCCACACTCGATTCTAAGAT-AGAAAACTTACTTAGTTGTAAATC
131 TTTGATTCCCTATAAGATATTCCACACTCGATTCTGAGATCA-AAAACTTACTTGGTTGTAAATC
* * * *
92474753 ACGACTTGACCGTCCCATTGGCACCTTCATTTGTCAGTATAAGGCTGTCACTAAGT
195 ACGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGT
92474809 GCGAGAAAAG
Statistics
Matches: 446, Mismatches: 78, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
275 1 0.00
276 169 0.38
277 49 0.11
278 227 0.51
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (277 bp):
TTCAACCCATTTTTCCTCTCATAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCATT
TTTGATTCCCTATAAGATATTCCACACTCGATTCTGAGATCAAAAACTTACTTGGTTGTAAATCA
CGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTATGGGAAAAA
TAGTTCCACCTCATTTT
Found at i:92483826 original size:20 final size:19
Alignment explanation
Indices: 92483782--92483819 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
92483772 TAAGTAATTT
92483782 TAAATATTATATAAAAAAA
1 TAAATATTATATAAAAAAA
*
92483801 TAAATATT-TATTAAAAAA
1 TAAATATTATATAAAAAAA
92483819 T
1 T
92483820 TATAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATATTATATAAAAAAA
Found at i:92499041 original size:22 final size:22
Alignment explanation
Indices: 92499016--92499066 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
92499006 AGGAAGGCAG
92499016 GAAATAAAAATGAAAGGAGACC
1 GAAATAAAAATGAAAGGAGACC
*
92499038 GAAATAAAAATGAAAGGAGAGC
1 GAAATAAAAATGAAAGGAGACC
*
92499060 AAAATAA
1 GAAATAA
92499067 TTTTAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.63, C:0.06, G:0.22, T:0.10
Consensus pattern (22 bp):
GAAATAAAAATGAAAGGAGACC
Found at i:92503416 original size:15 final size:15
Alignment explanation
Indices: 92503394--92503426 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
92503384 AATTTGATTT
*
92503394 TTAAAATTTATA-TA
1 TTAAAAATTATACTA
92503408 TTAAAAATTATACTA
1 TTAAAAATTATACTA
92503423 TTAA
1 TTAA
92503427 GTTAAAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAAAATTATACTA
Found at i:92505054 original size:6 final size:6
Alignment explanation
Indices: 92505045--92505086 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
92505035 GCGATGGGCA
92505045 TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG
1 TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG
92505087 AGTAGGATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.00, G:0.67, T:0.17
Consensus pattern (6 bp):
TGGGAG
Found at i:92511346 original size:41 final size:41
Alignment explanation
Indices: 92511298--92511380 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
92511288 GTGTTGGAGG
92511298 TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
1 TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
92511339 TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
1 TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
92511380 T
1 T
92511381 TTGCTATAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (41 bp):
TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
Found at i:92511869 original size:13 final size:13
Alignment explanation
Indices: 92511851--92511875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92511841 GAGTCCTCCG
92511851 CTACACAGATTAC
1 CTACACAGATTAC
92511864 CTACACAGATTA
1 CTACACAGATTA
92511876 AACAGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
CTACACAGATTAC
Found at i:92514085 original size:5 final size:5
Alignment explanation
Indices: 92514075--92514114 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
92514065 TAGGACTTTG
* *
92514075 TATGA TATGA TATGA TCTGA TATAA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
92514115 ATCAATATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (5 bp):
TATGA
Found at i:92514104 original size:20 final size:20
Alignment explanation
Indices: 92514079--92514130 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
92514069 ACTTTGTATG
*
92514079 ATATGATATGATCTGATAT-A
1 ATATGATATGATATGA-ATCA
92514099 ATATGATATGATATGAATCA
1 ATATGATATGATATGAATCA
*
92514119 ATATGGTATGAT
1 ATATGATATGAT
92514131 TTATGATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.38
Consensus pattern (20 bp):
ATATGATATGATATGAATCA
Found at i:92523786 original size:15 final size:15
Alignment explanation
Indices: 92523766--92523795 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92523756 AATTATAAGT
*
92523766 ACATACTCTCAACTA
1 ACATACACTCAACTA
92523781 ACATACACTCAACTA
1 ACATACACTCAACTA
92523796 TCAAAGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
ACATACACTCAACTA
Found at i:92529715 original size:17 final size:17
Alignment explanation
Indices: 92529681--92529714 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
92529671 ACTAAATTTG
92529681 TCATTATACCCTTTTTT
1 TCATTATACCCTTTTTT
92529698 TCATTATA-CCTTTTTT
1 TCATTATACCCTTTTTT
92529714 T
1 T
92529715 TTAACTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (17 bp):
TCATTATACCCTTTTTT
Found at i:92529908 original size:20 final size:19
Alignment explanation
Indices: 92529866--92529929 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
92529856 TATTTAAAAA
* *
92529866 TAAAAATACATAAATATTTT
1 TAAAAATACATAAA-AATAT
92529886 TAAAAATACATAAAAACTAT
1 TAAAAATACATAAAAA-TAT
92529906 TAAAAA-ACCA-AAAAATAT
1 TAAAAATA-CATAAAAATAT
92529924 TAAAAA
1 TAAAAA
92529930 ATATTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
18 9 0.22
19 7 0.17
20 24 0.60
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAAAATACATAAAAATAT
Found at i:92533805 original size:19 final size:19
Alignment explanation
Indices: 92533733--92533805 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 19
92533723 GATGAAAACC
*
92533733 ATTAATTAAATTAATTATA-
1 ATTAACTAAATTAATTA-AG
*
92533752 ATTAA-TATATATTATTTAAG
1 ATTAACTA-A-ATTAATTAAG
92533772 -TTAAC--AATTAATTAAG
1 ATTAACTAAATTAATTAAG
92533788 ATTAACTAAATTAATTAA
1 ATTAACTAAATTAATTAA
92533806 ACTTTAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
16 9 0.20
17 6 0.13
18 2 0.04
19 21 0.47
20 7 0.16
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
ATTAACTAAATTAATTAAG
Found at i:92533905 original size:12 final size:12
Alignment explanation
Indices: 92533888--92533912 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92533878 ATTTGTCATT
92533888 AAAAAAAAGAAA
1 AAAAAAAAGAAA
92533900 AAAAAAAAGAAA
1 AAAAAAAAGAAA
92533912 A
1 A
92533913 TCCCAAGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:92554068 original size:40 final size:40
Alignment explanation
Indices: 92554021--92554099 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
92554011 AAATACCATG
92554021 TGGGGATAAAATCGACCCATCCAACCCTACACACCAAGTA
1 TGGGGATAAAATCGACCCATCCAACCCTACACACCAAGTA
* *
92554061 TGGGGATAAAATCGATCCATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCGACCCATCCAACCCTACACACCAAGT
92554100 GGTACTGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.16
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCATCCAACCCTACACACCAAGTA
Found at i:92561286 original size:40 final size:40
Alignment explanation
Indices: 92561208--92561286 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
92561198 ACACACCATG
*
92561208 TGGGGATAAAATCGACCCACCCAGCCCTACAAATCAAGTA
1 TGGGGATAAAATCGACCCACCCAGCCCTACAAACCAAGTA
* *
92561248 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCGACCCACCCAGCCCTACAAACCAAGT
92561287 GGTACTGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAGCCCTACAAACCAAGTA
Found at i:92567279 original size:18 final size:18
Alignment explanation
Indices: 92567258--92567299 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
92567248 TTTAAGTTTA
92567258 TAATATTTT-TATATTATG
1 TAAT-TTTTATATATTATG
92567276 TAATTTTTATATATTATG
1 TAATTTTTATATATTATG
92567294 TAATTT
1 TAATTT
92567300 GTACCAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TAATTTTTATATATTATG
Found at i:92585452 original size:20 final size:20
Alignment explanation
Indices: 92585427--92585467 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
92585417 AAAATAAAAA
*
92585427 TAAAAATACATAAATAAATTT
1 TAAAAA-ACAAAAATAAATTT
*
92585448 TAAAAAATAAAAATAAATTT
1 TAAAAAACAAAAATAAATTT
92585468 ATATTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAAACAAAAATAAATTT
Found at i:92591917 original size:17 final size:18
Alignment explanation
Indices: 92591897--92591932 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
92591887 ATTCTTTCAC
92591897 TATC-TAAATATGTTCTA
1 TATCTTAAATATGTTCTA
92591914 TATCTTTAAATATGTTCTA
1 TATC-TTAAATATGTTCTA
92591933 ACTCATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
19 13 0.76
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (18 bp):
TATCTTAAATATGTTCTA
Found at i:92592796 original size:14 final size:14
Alignment explanation
Indices: 92592777--92592806 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
92592767 CCTTTTTTGG
92592777 AAAAAAAACCAAGA
1 AAAAAAAACCAAGA
*
92592791 AAAAAAAACGAAGA
1 AAAAAAAACCAAGA
92592805 AA
1 AA
92592807 GACCTTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAACCAAGA
Found at i:92597735 original size:22 final size:21
Alignment explanation
Indices: 92597699--92597743 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
92597689 TTTAATAATG
92597699 AATTAAATTATTA-TTATAAGT
1 AATTAAATTATTATTTA-AAGT
*
92597720 AATTAATTATATTATTTAAAGT
1 AATTAAAT-TATTATTTAAAGT
92597742 AA
1 AA
92597744 AAAGATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 11 0.52
23 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
AATTAAATTATTATTTAAAGT
Found at i:92597859 original size:29 final size:27
Alignment explanation
Indices: 92597791--92597859 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 27
92597781 ACTCAAACGT
* *
92597791 TTATATAATTAATAATTAATTAATTAA
1 TTATATAATTAAAAATTAAATAATTAA
* *
92597818 TAAAATAATATTAAAAATTAAATACTATTAA
1 TTATAT-A-ATTAAAAATTAAATA--ATTAA
92597849 TTATATAATTA
1 TTATATAATTA
92597860 TTTTATAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
27 4 0.12
28 1 0.03
29 17 0.53
30 1 0.03
31 9 0.28
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (27 bp):
TTATATAATTAAAAATTAAATAATTAA
Found at i:92598025 original size:15 final size:15
Alignment explanation
Indices: 92598007--92598036 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92597997 TACACCTAAA
*
92598007 TTTATGTTAATTAGC
1 TTTAGGTTAATTAGC
92598022 TTTAGGTTAATTAGC
1 TTTAGGTTAATTAGC
92598037 ACTAAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.50
Consensus pattern (15 bp):
TTTAGGTTAATTAGC
Found at i:92599381 original size:22 final size:22
Alignment explanation
Indices: 92599356--92599397 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
92599346 ATTTTAAAAA
*
92599356 TATTTAATTTCTTAACATTTAC
1 TATTTAATTTCTTAAAATTTAC
* *
92599378 TATTTTATTTTTTAAAATTT
1 TATTTAATTTCTTAAAATTT
92599398 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTAATTTCTTAAAATTTAC
Found at i:92608676 original size:63 final size:63
Alignment explanation
Indices: 92608559--92608703 Score: 173
Period size: 63 Copynumber: 2.3 Consensus size: 63
92608549 CGTGTGGTTA
* * * * * *
92608559 CAAACAGTGTGTCACACGGCCTGGACACATGCCTATGTCTTTGGCTCATGTGGTCTAAAAACG
1 CAAACAGTGAGTCACACGGCCTGGACACACGCCTATGACCTTGGCCCATATGGTCTAAAAACG
* * * ***
92608622 CAAATAGTGAGTCACACGGCCTGGACACACGTCTATGACCTTGGCCCATATGGTCTATAGGGG
1 CAAACAGTGAGTCACACGGCCTGGACACACGCCTATGACCTTGGCCCATATGGTCTAAAAACG
*
92608685 TAAACAGTGAGTCACACGG
1 CAAACAGTGAGTCACACGG
92608704 ACTAGACATA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.23
Consensus pattern (63 bp):
CAAACAGTGAGTCACACGGCCTGGACACACGCCTATGACCTTGGCCCATATGGTCTAAAAACG
Found at i:92609309 original size:11 final size:10
Alignment explanation
Indices: 92609290--92609347 Score: 64
Period size: 11 Copynumber: 5.6 Consensus size: 10
92609280 AATGGAAATT
92609290 AGAACAAAAAA
1 AGAA-AAAAAA
92609301 AGAAGAAAAAA
1 AGAA-AAAAAA
92609312 AGAAAAAGAAA
1 AGAAAAA-AAA
92609323 AG-AAAAAAA
1 AGAAAAAAAA
* *
92609332 ATAAAAGAAA
1 AGAAAAAAAA
92609342 AGAAAA
1 AGAAAA
92609348 GGAAAGACCG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
9 4 0.10
10 18 0.44
11 19 0.46
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.02
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:92609312 original size:14 final size:13
Alignment explanation
Indices: 92609290--92609348 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 13
92609280 AATGGAAATT
*
92609290 AGAACAAAAAAAGA
1 AGAA-AAAAAAAAA
92609304 AGAAAAAAAGAAAA
1 AGAAAAAAA-AAAA
92609318 AGAAAAGAAAAAAA
1 AGAAAA-AAAAAAA
*
92609332 ATAAAAGAAAAGAAA
1 AGAAAA-AAAA-AAA
92609347 AG
1 AG
92609349 GAAAGACCGC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
13 5 0.13
14 27 0.69
15 7 0.18
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (13 bp):
AGAAAAAAAAAAA
Found at i:92609323 original size:5 final size:5
Alignment explanation
Indices: 92609298--92609354 Score: 62
Period size: 5 Copynumber: 11.2 Consensus size: 5
92609288 TTAGAACAAA
* *
92609298 AAAAG AAGAAA AAAAG AAAAAG AAAAG AAAA- AAAAT AAAAG AAAAG AAAAG
1 AAAAG AA-AAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
*
92609349 GAAAG A
1 AAAAG A
92609355 CCGCTAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
4 4 0.09
5 31 0.70
6 9 0.20
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:92609325 original size:19 final size:19
Alignment explanation
Indices: 92609303--92609347 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
92609293 ACAAAAAAAG
92609303 AAGAAAAAAAGA-AAAAGAA
1 AAGAAAAAAA-ATAAAAGAA
92609322 AAGAAAAAAAATAAAAGAA
1 AAGAAAAAAAATAAAAGAA
92609341 AAGAAAA
1 AAGAAAA
92609348 GGAAAGACCG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.02
Consensus pattern (19 bp):
AAGAAAAAAAATAAAAGAA
Found at i:92610315 original size:17 final size:17
Alignment explanation
Indices: 92610278--92610317 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
92610268 TAGGTAGTAG
92610278 AAGAAAAAGAAGAGAGA
1 AAGAAAAAGAAGAGAGA
*
92610295 AAGAAGAAGAAGAG-GA
1 AAGAAAAAGAAGAGAGA
92610311 TAAGAAA
1 -AAGAAA
92610318 TGAAGATGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (17 bp):
AAGAAAAAGAAGAGAGA
Found at i:92612167 original size:15 final size:15
Alignment explanation
Indices: 92612147--92612177 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
92612137 TGCAGTTTGA
92612147 GGGCTACCAAAAGTG
1 GGGCTACCAAAAGTG
*
92612162 GGGCTACTAAAAGTG
1 GGGCTACCAAAAGTG
92612177 G
1 G
92612178 AAAGAGAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (15 bp):
GGGCTACCAAAAGTG
Found at i:92612633 original size:5 final size:5
Alignment explanation
Indices: 92612623--92612652 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
92612613 TCAAATGTAG
92612623 ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
92612653 CATTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:92616421 original size:27 final size:27
Alignment explanation
Indices: 92616391--92616478 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
92616381 AGTCCATCGA
* *
92616391 GACATTAAACATGGGGTAGTTCGCTAG
1 GACAATAAACACGGGGTAGTTCGCTAG
* * * *
92616418 GACAACAAACACAGGGTAGTCCG-TCAA
1 GACAATAAACACGGGGTAGTTCGCT-AG
* *
92616445 GACAATAAACACGAGGTAGTTCACTAG
1 GACAATAAACACGGGGTAGTTCGCTAG
92616472 GACAATA
1 GACAATA
92616479 GATATGGGGT
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
26 1 0.02
27 45 0.96
28 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (27 bp):
GACAATAAACACGGGGTAGTTCGCTAG
Found at i:92616640 original size:27 final size:27
Alignment explanation
Indices: 92616580--92616651 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
92616570 AGTTCGTTGA
* * *
92616580 GACAGTAAAAATATGGTAGTCTATCGG
1 GACAGTAAAAATAAGGTAGTCCACCGG
*
92616607 GCCAGTAAAAATAAGGTAGTCCACCGG
1 GACAGTAAAAATAAGGTAGTCCACCGG
* * *
92616634 GATAGTAAACACAAGGTA
1 GACAGTAAAAATAAGGTA
92616652 ATCTGTTGGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.19
Consensus pattern (27 bp):
GACAGTAAAAATAAGGTAGTCCACCGG
Found at i:92616729 original size:27 final size:27
Alignment explanation
Indices: 92616668--92616722 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
92616658 TGGAACAGTT
* *
92616668 ACACGGGGTAGTCCATCGAGATAGTAA
1 ACACGGGGTAGTCCATCAAGACAGTAA
*
92616695 ACACGGGGTAGTCTATCAAGACAGTAA
1 ACACGGGGTAGTCCATCAAGACAGTAA
92616722 A
1 A
92616723 ATTGGGGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (27 bp):
ACACGGGGTAGTCCATCAAGACAGTAA
Found at i:92624308 original size:44 final size:43
Alignment explanation
Indices: 92624244--92624354 Score: 143
Period size: 44 Copynumber: 2.6 Consensus size: 43
92624234 TCTAGTTCTT
* * **
92624244 TTATATAT-TTTTATAAATTTATAAATCTATCAATTTTTATTTA
1 TTATATATATTTTATATATTTATAAATCT-TCAATATTTATAAA
*
92624287 TTATATATATTTTATATATTTATAAATCTTCAATATTTGTAAA
1 TTATATATATTTTATATATTTATAAATCTTCAATATTTATAAA
*
92624330 TGTATATATATTTTATATTTTTATA
1 T-TATATATATTTTATATATTTATA
92624355 TTTTTTCAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
43 19 0.32
44 41 0.68
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (43 bp):
TTATATATATTTTATATATTTATAAATCTTCAATATTTATAAA
Found at i:92632655 original size:10 final size:10
Alignment explanation
Indices: 92632642--92632682 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
92632632 TTTATAATTC
92632642 TTTTCTTA-T
1 TTTTCTTATT
92632651 TTTT-TTATT
1 TTTTCTTATT
*
92632660 TTTCCTTATT
1 TTTTCTTATT
*
92632670 TTCTCTTATT
1 TTTTCTTATT
92632680 TTT
1 TTT
92632683 AAAATTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 3 0.12
9 8 0.31
10 15 0.58
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTCTTATT
Found at i:92636388 original size:5 final size:5
Alignment explanation
Indices: 92636373--92636409 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
92636363 GATGGGAGGG
*
92636373 AGATC ATATC AGATC AGATC AGATC AGATC AGATC AG
1 AGATC AGATC AGATC AGATC AGATC AGATC AGATC AG
92636410 CAATGTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
AGATC
Found at i:92647794 original size:31 final size:31
Alignment explanation
Indices: 92647751--92647834 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
92647741 TTAGTCTTGA
92647751 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
*
92647781 CATATCACTGGGCCAAAGCCCTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
* *
92647812 CATTTCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCAAAGCCTTT
92647835 ACTGTAAACG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTTCATAAAT
Found at i:92647905 original size:42 final size:42
Alignment explanation
Indices: 92647858--92647949 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
92647848 TGGCCCATAG
* ** *
92647858 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
92647900 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
92647942 GCCCATTT
1 GCCCATTT
92647950 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:92648112 original size:25 final size:25
Alignment explanation
Indices: 92648082--92648165 Score: 116
Period size: 25 Copynumber: 3.4 Consensus size: 25
92648072 CTGGAGGCCT
* *
92648082 AGCCTTTTTTAAT-AACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
* *
92648106 AGCCCTTTTCAGTAAACTGTGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
92648131 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
92648157 AGCCCTTTT
1 AGCCCTTTT
92648166 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
24 10 0.19
25 32 0.62
26 10 0.19
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:92648240 original size:20 final size:20
Alignment explanation
Indices: 92648215--92648301 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
92648205 TTATGAATAC
92648215 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
92648235 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
92648255 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
92648275 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
92648295 ATCATGT
1 ATCATGT
92648302 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:92649181 original size:54 final size:54
Alignment explanation
Indices: 92649106--92649236 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 54
92649096 CATCCTACAA
* * * *** **
92649106 GGGTGTTTTGGTAAATCTACAAATCAAGAGTATTTCTG-TAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAATCAAGAGTATTTC-GATAATTTCACAAACCAG
** *
92649160 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGAGTATTTCGATAATTTCACAAACCAG
*
92649214 TGGTATTTTGGTAATTTTACAAA
1 GGGTATTTTGGTAATTTTACAAA
92649237 CTAGGGGTGT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 63 0.98
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCAAGAGTATTTCGATAATTTCACAAACCAG
Found at i:92649406 original size:28 final size:26
Alignment explanation
Indices: 92649356--92649489 Score: 99
Period size: 28 Copynumber: 4.9 Consensus size: 26
92649346 GAGGGTAAAA
* * *
92649356 TAGTAATTCTATAAATCGAGGGTACTT
1 TAGTAATTTTACAAGTCGAGGGTA-TT
*
92649383 TGGTAATTTTTACAAGTCGAGGGTATT
1 TAGTAA-TTTTACAAGTCGAGGGTATT
* *
92649410 TCAGTAATTTTACAAATTAGAGGGTATTT
1 T-AGTAATTTTAC-AAGTCGAGGGTA-TT
* *
92649439 TAGTAATTTTACAA-ACCAGGGGTATTT
1 TAGTAATTTTACAAGTCGA-GGGTA-TT
** *
92649466 TAGTAATTTTGTAAATCGAGGGTA
1 TAGTAATTTTACAAGTCGAGGGTA
92649490 AAATGGTAAT
Statistics
Matches: 87, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
26 1 0.01
27 41 0.47
28 42 0.48
29 3 0.03
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (26 bp):
TAGTAATTTTACAAGTCGAGGGTATT
Found at i:92649462 original size:137 final size:135
Alignment explanation
Indices: 92649268--92649516 Score: 345
Period size: 137 Copynumber: 1.8 Consensus size: 135
92649258 TATCCTATAG
* * ** *
92649268 GGGTATTTCAGTAATTTCACAATCGAGGGTAAAATGGTAATTTTGTAAATCAGGGGTAAAATAGT
1 GGGTATTTCAGTAATTTCACAATAGAGGGTAAAATAGTAATTTTACAAACCAGGGGTAAAATAGT
92649333 AATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAA
66 AATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAA
92649398 GTCGA
131 GTCGA
* *** ***
92649403 GGGTATTTCAGTAATTTTACAAATTAGAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTA
1 GGGTATTTCAGTAATTTCAC-AA-TAGAGGGTAAAATAGTAATTTTACAAACCAGGGGTAAAATA
* * *
92649468 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAGATCGAGGGTA
64 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTA
92649517 AAATGGTAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
135 19 0.20
136 2 0.02
137 76 0.78
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (135 bp):
GGGTATTTCAGTAATTTCACAATAGAGGGTAAAATAGTAATTTTACAAACCAGGGGTAAAATAGT
AATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAA
GTCGA
Found at i:92649488 original size:27 final size:27
Alignment explanation
Indices: 92649126--92649543 Score: 172
Period size: 27 Copynumber: 15.4 Consensus size: 27
92649116 GTAAATCTAC
* * *
92649126 AAATCAAGAGTATTTCT-GTAATTTTGT
1 AAATCGAGGGTATTT-TAGTAATTTTAT
* * *
92649153 AAAT-TAGGGGTATTTTGGTAATTTTAC
1 AAATCGA-GGGTATTTTAGTAATTTTAT
* * * *
92649180 AAATTGAGGGTA-TTTCGATAATTTCAC
1 AAATCGAGGGTATTTTAG-TAATTTTAT
* * *
92649207 AAA-CCAGTGGTATTTTGGTAATTTTAC
1 AAATCGAG-GGTATTTTAGTAATTTTAT
* * *
92649234 AAA-CTAGGGGTGTTTTAGTAATTCTAT
1 AAATCGA-GGGTATTTTAGTAATTTTAT
** * * *
92649261 CCTATAG-GGGTATTTCAGTAATTTCA-
1 -AAATCGAGGGTATTTTAGTAATTTTAT
* *** * *
92649287 CAATCGAGGGTAAAATGGTAATTTTGT
1 AAATCGAGGGTATTTTAGTAATTTTAT
*** * *
92649314 AAATC-AGGGGTAAAATAGTAATTCTGT
1 AAATCGA-GGGTATTTTAGTAATTTTAT
*** *
92649341 AAATCGAGGGTAAAATAGTAATTCTAT
1 AAATCGAGGGTATTTTAGTAATTTTAT
* *
92649368 AAATCGAGGGTACTTTGGTAATTTT-T
1 AAATCGAGGGTATTTTAGTAATTTTAT
* *
92649394 ACAAGTCGAGGGTATTTCAGTAATTTTAC
1 A-AA-TCGAGGGTATTTTAGTAATTTTAT
* *
92649423 AAATTAGAGGGTATTTTAGTAATTTTAC
1 AAA-TCGAGGGTATTTTAGTAATTTTAT
* *
92649451 AAA-CCAGGGGTATTTTAGTAATTTTGT
1 AAATCGA-GGGTATTTTAGTAATTTTAT
*** * *
92649478 AAATCGAGGGTAAAATGGTAATTCTAT
1 AAATCGAGGGTATTTTAGTAATTTTAT
* *** * *
92649505 AGATCGAGGGTAAAATGGTAATTCTAT
1 AAATCGAGGGTATTTTAGTAATTTTAT
92649532 AAATCGAGGGTA
1 AAATCGAGGGTA
92649544 GAACGATAAT
Statistics
Matches: 311, Mismatches: 62, Indels: 36
0.76 0.15 0.09
Matches are distributed among these distances:
25 4 0.01
26 24 0.08
27 226 0.73
28 56 0.18
29 1 0.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (27 bp):
AAATCGAGGGTATTTTAGTAATTTTAT
Found at i:92649518 original size:191 final size:189
Alignment explanation
Indices: 92649215--92649582 Score: 476
Period size: 191 Copynumber: 1.9 Consensus size: 189
92649205 ACAAACCAGT
** * ** *
92649215 GGTATTTTGGTAATTTTACAAACTAGGGGTGTTTTAGTAATTCTATCCTATAGGGGTATTTCAGT
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTATCAAACAGGGGTATTTCAGT
* * *
92649280 AATTTCACAATCGAGGGTAAAATGGTAATTTTGTAAATCAGGGGTAAAATAGTAATTCTGTAAAT
66 AATTTCACAATCGAGGGTAAAATGGTAATTCTATAAATCAGGGGTAAAATAGTAATTCTATAAAT
92649345 CGAGGGTAAAATAG-TAATTCTATAAATC-GAGGGTACTTTGGTAATTTTTACAAGTCGAG
131 CGAGGGTAAAA-AGATAATTCTATAAATCAG-GGGTACTTTGGTAATTTTTACAAGTCGAG
* * *
92649404 GGTATTTCAGTAATTTTACAAATTAGAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTA
1 GGTATTTCAGTAATTTTACAAACTAG-GGGTATTTTAGTAATTCTATCAAA-CAGGGGTATTTCA
* * *
92649468 GTAATTTTGTA-AATCGAGGGTAAAATGGTAATTCTATAGATC-GAGGGTAAAATGGTAATTCTA
64 GTAA-TTT-CACAATCGAGGGTAAAATGGTAATTCTATAAATCAG-GGGTAAAATAGTAATTCTA
* * *
92649531 TAAATCGAGGGTAGAACGATAATTCTGTAAATCAGGGGTACTTTGGTAATTT
126 TAAATCGAGGGTAAAAAGATAATTCTATAAATCAGGGGTACTTTGGTAATTT
92649583 GGTAAACTAA
Statistics
Matches: 154, Mismatches: 18, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
189 25 0.16
190 34 0.22
191 93 0.60
192 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.36
Consensus pattern (189 bp):
GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTATCAAACAGGGGTATTTCAGT
AATTTCACAATCGAGGGTAAAATGGTAATTCTATAAATCAGGGGTAAAATAGTAATTCTATAAAT
CGAGGGTAAAAAGATAATTCTATAAATCAGGGGTACTTTGGTAATTTTTACAAGTCGAG
Found at i:92649553 original size:27 final size:27
Alignment explanation
Indices: 92649288--92649567 Score: 174
Period size: 27 Copynumber: 10.3 Consensus size: 27
92649278 GTAATTTCAC
* *
92649288 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
92649315 AATC-AGGGGTAAAATAGTAATTCTGTA
1 AATCGA-GGGTAAAATGGTAATTCTATA
*
92649342 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*** *
92649369 AATCGAGGGTACTTTGGTAATT-TTTA
1 AATCGAGGGTAAAATGGTAATTCTATA
** * * *
92649395 CAAGTCGAGGGT-ATTTCAGTAATTTTACA
1 -AA-TCGAGGGTAAAAT-GGTAATTCTATA
* *** * * *
92649424 AATTAGAGGGTATTTTAGTAATTTTACA
1 AA-TCGAGGGTAAAATGGTAATTCTATA
* *** * * *
92649452 AA-CCAGGGGTATTTTAGTAATTTTGTA
1 AATCGA-GGGTAAAATGGTAATTCTATA
92649479 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
92649506 GATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
92649533 AATCGAGGGTAGAACGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
92649560 AATC-AGGG
1 AATCGAGGG
92649568 GTACTTTGGT
Statistics
Matches: 212, Mismatches: 32, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
26 9 0.04
27 158 0.75
28 40 0.19
29 5 0.02
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:92649578 original size:54 final size:54
Alignment explanation
Indices: 92649455--92649581 Score: 130
Period size: 54 Copynumber: 2.4 Consensus size: 54
92649445 TTTTACAAAC
* * * * * * *
92649455 CAGGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAGAT
1 CAGGGGTAATTTGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAAT
** * *
92649509 C-GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAGAACGATAATTCTGTAAAT
1 CAG-GGGTAATTTGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAAT
*
92649563 CAGGGGTACTTTGGTAATT
1 CAGGGGTAATTTGGTAATT
92649582 TGGTAAACTA
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
53 1 0.02
54 55 0.96
55 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (54 bp):
CAGGGGTAATTTGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAAT
Found at i:92654902 original size:18 final size:17
Alignment explanation
Indices: 92654834--92654909 Score: 75
Period size: 18 Copynumber: 4.4 Consensus size: 17
92654824 AGAAAGTGGA
*
92654834 AAAGTGAATTTGAATTG
1 AAAGTGAAATTGAATTG
92654851 -AA-TGATAATTGAATTG
1 AAAGTGA-AATTGAATTG
* **
92654867 AATTGTGATTTTGAATTG
1 AA-AGTGAAATTGAATTG
92654885 AAAGTGAAATTGACATTG
1 AAAGTGAAATTGA-ATTG
92654903 AAAGTGA
1 AAAGTGA
92654910 TTTGAAATGT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
15 3 0.06
16 11 0.23
17 9 0.19
18 21 0.45
19 3 0.06
ACGTcount: A:0.41, C:0.01, G:0.22, T:0.36
Consensus pattern (17 bp):
AAAGTGAAATTGAATTG
Found at i:92654914 original size:34 final size:32
Alignment explanation
Indices: 92654834--92654915 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 32
92654824 AGAAAGTGGA
92654834 AAAGTGAATTTGAATTGAATGATAATTGAATTG
1 AAAGTG-ATTTGAATTGAATGATAATTGAATTG
*
92654867 AATTGTGATTTTGAATTGAAAGTGA-AATTGACATTG
1 AA-AGTGA-TTTGAATTG-AA-TGATAATTGA-ATTG
92654903 AAAGTGATTTGAA
1 AAAGTGATTTGAA
92654916 ATGTGAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
33 3 0.07
34 18 0.43
35 12 0.29
36 9 0.21
ACGTcount: A:0.40, C:0.01, G:0.22, T:0.37
Consensus pattern (32 bp):
AAAGTGATTTGAATTGAATGATAATTGAATTG
Found at i:92654922 original size:18 final size:17
Alignment explanation
Indices: 92654834--92654922 Score: 53
Period size: 18 Copynumber: 5.1 Consensus size: 17
92654824 AGAAAGTGGA
92654834 AAAGTGAATTTG-AATTG
1 AAAGTG-ATTTGAAATTG
92654851 -AA-TGATAATTG-AATTG
1 AAAGTGAT--TTGAAATTG
*
92654867 AATTGTGATTTTG-AATTG
1 AA-AGTGA-TTTGAAATTG
* *
92654885 AAAGTGAAATTGACATTG
1 AAAGTG-ATTTGAAATTG
92654903 AAAGTGATTTGAAATGTG
1 AAAGTGATTTGAAAT-TG
92654921 AA
1 AA
92654923 TTTGGAGACC
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
14 2 0.04
15 2 0.04
16 10 0.18
17 14 0.25
18 25 0.44
19 3 0.05
20 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.22, T:0.36
Consensus pattern (17 bp):
AAAGTGATTTGAAATTG
Found at i:92659372 original size:43 final size:43
Alignment explanation
Indices: 92659324--92659469 Score: 158
Period size: 43 Copynumber: 3.4 Consensus size: 43
92659314 TATCCTAGAT
* *
92659324 ATGGTCTTACATGTTATCTCATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
** *
92659367 ATGGTCTTACACAAAATCAT-ATAAT-GATGCCAA--TCCCAAAC
1 ATGGTCTTACACGTAATC-TCAT-ATCGATGCCAATGTCCCAGAC
* *
92659408 ATGGTCTTACACGTAATCACAGTA-CAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCA-TATCGATGCCAATGTCCCAGAC
*
92659451 ATGGTCTTACATGTAATCT
1 ATGGTCTTACACGTAATCT
92659470 TATCTCGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
41 32 0.38
42 1 0.01
43 48 0.57
44 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
Found at i:92659404 original size:41 final size:43
Alignment explanation
Indices: 92659349--92659461 Score: 135
Period size: 41 Copynumber: 2.7 Consensus size: 43
92659339 ATCTCATATC
*
92659349 GATGCCAATGTCCCAGACATGGTCTTACACAAAATCATA-TA-A
1 GATGCCAA-GTCCCAGACATGGTCTTACACAAAATCACAGTACA
* **
92659391 TGATGCCAA-TCCCAAACATGGTCTTACACGTAATCACAGTACA
1 -GATGCCAAGTCCCAGACATGGTCTTACACAAAATCACAGTACA
92659434 -ATGCCAATGTCCCAGACATGGTCTTACA
1 GATGCCAA-GTCCCAGACATGGTCTTACA
92659462 TGTAATCTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
41 32 0.52
42 2 0.03
43 27 0.44
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
GATGCCAAGTCCCAGACATGGTCTTACACAAAATCACAGTACA
Found at i:92666594 original size:40 final size:40
Alignment explanation
Indices: 92666371--92666593 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
92666361 CAGATGATAA
* * *
92666371 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
92666411 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
92666451 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
92666491 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
92666531 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
92666571 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
92666594 GAGCGAATAG
Statistics
Matches: 169, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.01
40 168 0.99
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:92671204 original size:27 final size:26
Alignment explanation
Indices: 92671146--92671231 Score: 93
Period size: 27 Copynumber: 3.3 Consensus size: 26
92671136 TGGGGGAAGC
* *
92671146 GTTCTGGTGG-TATGCCACAAATATAT
1 GTTCTGGTGGCTCTGCCA-AAATATCT
92671172 GTTCTGGTGGCTCTGCCAAAATATCT
1 GTTCTGGTGGCTCTGCCAAAATATCT
* * * *
92671198 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCAAAATATCT
92671225 GTTCTGG
1 GTTCTGG
92671232 CAGCTCTACT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 24 0.46
27 28 0.54
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCAAAATATCT
Found at i:92673615 original size:18 final size:20
Alignment explanation
Indices: 92673576--92673617 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
92673566 ATTTACCTGC
92673576 TATTATTATTCGTTTATCTAT
1 TATTATTATTCGTTTA-CTAT
92673597 TATTATTATT-GTTTA-TAT
1 TATTATTATTCGTTTACTAT
92673615 TAT
1 TAT
92673618 AGGCTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
20 5 0.24
21 10 0.48
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (20 bp):
TATTATTATTCGTTTACTAT
Found at i:92677575 original size:34 final size:34
Alignment explanation
Indices: 92677532--92677601 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
92677522 ATTCGGAGCC
92677532 AGAATAACAAGTAAAGTCTAGTGGATTTTTCCTT
1 AGAATAACAAGTAAAGTCTAGTGGATTTTTCCTT
* *
92677566 AGAATAACAAGTAAATTTTAGTGGATTTTTCCTT
1 AGAATAACAAGTAAAGTCTAGTGGATTTTTCCTT
92677600 AG
1 AG
92677602 GTATTGTCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (34 bp):
AGAATAACAAGTAAAGTCTAGTGGATTTTTCCTT
Found at i:92681525 original size:40 final size:40
Alignment explanation
Indices: 92681464--92681715 Score: 321
Period size: 40 Copynumber: 6.3 Consensus size: 40
92681454 CATTTGAATG
* *
92681464 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
92681504 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
92681544 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
92681584 TTATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
92681624 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
92681664 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
92681704 ATATCC-GGCTAA
1 ATATCCGGGCTAA
92681716 ATTCCGAAGA
Statistics
Matches: 192, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 7 0.04
40 182 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:92705211 original size:23 final size:23
Alignment explanation
Indices: 92705184--92705231 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
92705174 ATTATCAAAG
* *
92705184 ATGC-ATTTTCATGCCATATATAA
1 ATGCAATTATCATG-CATACATAA
92705207 ATGCAATTATCATGCATACATAA
1 ATGCAATTATCATGCATACATAA
92705230 AT
1 AT
92705232 CATACAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (23 bp):
ATGCAATTATCATGCATACATAA
Found at i:92711130 original size:22 final size:21
Alignment explanation
Indices: 92711087--92711128 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
92711077 ATCTAGCCTA
92711087 AGAATAAAGAGGTTTTTGTTT
1 AGAATAAAGAGGTTTTTGTTT
92711108 AGAATAAAGAGGTTTTTGTTT
1 AGAATAAAGAGGTTTTTGTTT
92711129 TAACTAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (21 bp):
AGAATAAAGAGGTTTTTGTTT
Found at i:92712958 original size:18 final size:18
Alignment explanation
Indices: 92712935--92712969 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
92712925 GTTAAAATTT
92712935 CTTAACCAAAATTTAATA
1 CTTAACCAAAATTTAATA
*
92712953 CTTAACCAAATTTTAAT
1 CTTAACCAAAATTTAAT
92712970 CGACCTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (18 bp):
CTTAACCAAAATTTAATA
Found at i:92717662 original size:17 final size:17
Alignment explanation
Indices: 92717626--92717662 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
92717616 TCTGTAATTA
**
92717626 TTTATTTTATTTTTGGT
1 TTTATTTTATTTTTAAT
92717643 TTTATTTTATTTTTAAT
1 TTTATTTTATTTTTAAT
92717660 TTT
1 TTT
92717663 TGGTCTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTATTTTATTTTTAAT
Found at i:92722771 original size:31 final size:31
Alignment explanation
Indices: 92722736--92722797 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
92722726 CGGAGTAAGC
92722736 ATTACAATACTTAGTAAGTTTTAAGCAGTGT
1 ATTACAATACTTAGTAAGTTTTAAGCAGTGT
92722767 ATTACAATACTTAGTAAGTTTTAAGCAGTGT
1 ATTACAATACTTAGTAAGTTTTAAGCAGTGT
92722798 CAACAGATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (31 bp):
ATTACAATACTTAGTAAGTTTTAAGCAGTGT
Found at i:92733780 original size:2 final size:2
Alignment explanation
Indices: 92733773--92733814 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
92733763 TTGTAAACAG
*
92733773 GT GT GT GT GT GT GT GT GT GT GT TT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
92733815 AAAATTGCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
GT
Found at i:92733877 original size:24 final size:23
Alignment explanation
Indices: 92733840--92733885 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
92733830 TGTGAAGCTA
*
92733840 CAAAAGCTAGAAAGTCGAAAAGC
1 CAAAAGCTAAAAAGTCGAAAAGC
92733863 CAAAAGGCTAAAAAGTCGAAAAG
1 CAAAA-GCTAAAAAGTCGAAAAG
92733886 TGGGTTGTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.54, C:0.15, G:0.22, T:0.09
Consensus pattern (23 bp):
CAAAAGCTAAAAAGTCGAAAAGC
Found at i:92735515 original size:45 final size:45
Alignment explanation
Indices: 92735427--92735575 Score: 167
Period size: 45 Copynumber: 3.3 Consensus size: 45
92735417 AATGAACTCA
* * ** * *
92735427 GACCAACTCAACGAGCTTGGATGC-TCACATCCATAATGAACTTG
1 GACCAACTCAACGAGCTCGAATGCTTCACATATATCACGAACTTG
92735471 GACCAACTCAACGAGCTCGAATGCTTCACATATATCACGAACTTG
1 GACCAACTCAACGAGCTCGAATGCTTCACATATATCACGAACTTG
* * * **
92735516 GACCAACTCAACAAGTTCGAAT-TTCTCACATATATCACGAACTCA
1 GACCAACTCAACGAGCTCGAATGCT-TCACATATATCACGAACTTG
*
92735561 GACCAACTTAACGAG
1 GACCAACTCAACGAG
92735576 GTTGGATTTC
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
44 23 0.26
45 67 0.74
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (45 bp):
GACCAACTCAACGAGCTCGAATGCTTCACATATATCACGAACTTG
Found at i:92741937 original size:506 final size:506
Alignment explanation
Indices: 92740981--92742502 Score: 2542
Period size: 506 Copynumber: 3.0 Consensus size: 506
92740971 TAAATGTTTT
*
92740981 TGGTTGTACAGTAATGCTTTGTAACCCTATTTTGACGACGGACACGGGTTAGGGGTGTTACATTT
1 TGGTTGTACAGTAATGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGGGGTGTTACATTT
* * *
92741046 AGTGGTATTGATGTTACGATTTAGTCGATTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAA
66 AGTGGTATTAAAGTTACGTTTTAGTCGATTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAA
92741111 TACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCAT
131 TACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCAT
* *
92741176 ATAGATATGATGTCATCCAACCGAGGTGATTCCGATAAAGTTGGAAGTAACGCGCAAGCCTCTGT
196 ATAGATATGATGTCATCCAACCGAGGTGATTCCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGT
* * *
92741241 TCACGGAGTAGGTTTTAATAGTAGTGGGCTCGTAGCTAAGGGCGGCAGAGGTCAGGCTAAAGAAG
261 TCACGGAGCAGGTTTTAATAGTAGTGGGCCCGTAGCTGAGGGCGGCAGAGGTCAGGCTAAAGAAG
* * * *
92741306 CGTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTTGTAAGAATGAACCCGTTGGCTCAACGA
326 CCTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAACGAACCCGTTGGCTCAACGA
* *
92741371 CCTCCACTCCTACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGATCCAATATGTAC
391 CCTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTAC
* *
92741436 AAGTAATTCTTCAATTGATAAAATCTAAAAATATGGGGTTGAAGAGTTCCA
456 AAGTAATTCTTCAATTGATAAAATCTAAAAATATGGGGCTGAAGAGTTCCG
* *
92741487 TGGTTGTACAGTAGTGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGAGGTGTTACATTT
1 TGGTTGTACAGTAATGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGGGGTGTTACATTT
* *
92741552 AGTGGTATTAAAGTTACTTTTTAGTCGGTTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAA
66 AGTGGTATTAAAGTTACGTTTTAGTCGATTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAA
* * * *
92741617 TACATGTCGCTATATAAACTATGATAGTGTGATAATTCCTGACGCAAATTGAACTATATTTTCAT
131 TACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCAT
* * * *
92741682 ATAGATATGATGTCATACAACCAAGGTGATTTCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGC
196 ATAGATATGATGTCATCCAACCGAGGTGATTCCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGT
* * *
92741747 TCACGGAGCAAGTTTTAATAGTAGTGGGCCCGTAGCTGAGGGCGACAGAGGTTAGGCTAAAGAAG
261 TCACGGAGCAGGTTTTAATAGTAGTGGGCCCGTAGCTGAGGGCGGCAGAGGTCAGGCTAAAGAAG
* *
92741812 CCTTCTCCTAGATGATGTCTAAATTGTTTACAAAGTTCGTGAGAACGAACCCGTTGGCTCAATGA
326 CCTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAACGAACCCGTTGGCTCAACGA
*
92741877 GCTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTAC
391 CCTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTAC
92741942 AAGTAATTCTTCAATTGATAAAATCTAAAAATATGGGGCTGAAGAGTTCCG
456 AAGTAATTCTTCAATTGATAAAATCTAAAAATATGGGGCTGAAGAGTTCCG
* * * * **
92741993 TGGTTGTATAGTAATGCTTTATAACCCTAATTTAACGACAGACACAAGTTAGGGGTGTTACATTT
1 TGGTTGTACAGTAATGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGGGGTGTTACATTT
* * *
92742058 AGTGGTATTAAAGTTACGGTTTT-GTCTATTCTCGGACTAAACGTAGCATGTATGGAGTCTAGAA
66 AGTGGTATTAAAGTTAC-GTTTTAGTCGATTCTTGGACTAAACATAGCATGTATGGAGTCTAGAA
* *
92742122 ATACATGTCGTTATATAGCCTGTGATAGTGTGATAATTCCTAACACAAATTGAACTATATTTTCA
130 ATACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCA
92742187 TATAGATATGATGTCATCCAACCGAGGTGATTCCGATGAAGTTGGAAGTAACGCGCAAGCCTCCG
195 TATAGATATGATGTCATCCAACCGAGGTGATTCCGATGAAGTTGGAAGTAACGCGCAAGCCTCCG
* * *
92742252 TTTACGGAGCAGGTTTTAATAGTAATGGGCCCGTAGCTGAGGGCGGTAGAGGTCAGGCTAAAGAA
260 TTCACGGAGCAGGTTTTAATAGTAGTGGGCCCGTAGCTGAGGGCGGCAGAGGTCAGGCTAAAGAA
** * *
92742317 GATTTCTCCAAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAACGAACCTGTTGGCTCAACG
325 GCCTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAACGAACCCGTTGGCTCAACG
92742382 ACCTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTA
390 ACCTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTA
*
92742447 CAAGTAATTCTTCAATTGATAAAATCTGAAAATATGGGGCTGAAGAGTTCCG
455 CAAGTAATTCTTCAATTGATAAAATCTAAAAATATGGGGCTGAAGAGTTCCG
92742499 TGGT
1 TGGT
92742503 ACGGCCGATG
Statistics
Matches: 943, Mismatches: 72, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
506 939 1.00
507 4 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (506 bp):
TGGTTGTACAGTAATGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGGGGTGTTACATTT
AGTGGTATTAAAGTTACGTTTTAGTCGATTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAA
TACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCAT
ATAGATATGATGTCATCCAACCGAGGTGATTCCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGT
TCACGGAGCAGGTTTTAATAGTAGTGGGCCCGTAGCTGAGGGCGGCAGAGGTCAGGCTAAAGAAG
CCTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAACGAACCCGTTGGCTCAACGA
CCTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTAC
AAGTAATTCTTCAATTGATAAAATCTAAAAATATGGGGCTGAAGAGTTCCG
Found at i:92748185 original size:26 final size:26
Alignment explanation
Indices: 92748154--92748217 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
92748144 ATTCCGACTT
92748154 ACAGCTCATGTGAGCAGGTCCATTTC
1 ACAGCTCATGTGAGCAGGTCCATTTC
92748180 ACAGCTCATGTGAGCAGGTCCATTTC
1 ACAGCTCATGTGAGCAGGTCCATTTC
* *
92748206 ATAGCTTATGTG
1 ACAGCTCATGTG
92748218 TGCAATGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (26 bp):
ACAGCTCATGTGAGCAGGTCCATTTC
Found at i:92757799 original size:33 final size:33
Alignment explanation
Indices: 92757730--92757827 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
92757720 CTATACCCAT
* * *
92757730 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
92757767 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
92757800 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
92757828 ATATACATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:92758091 original size:41 final size:41
Alignment explanation
Indices: 92758046--92758242 Score: 299
Period size: 41 Copynumber: 4.8 Consensus size: 41
92758036 ACCGGCTCTT
*
92758046 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
92758087 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
92758128 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
92758169 AGCCTGCTAAACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
92758210 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
92758243 TAACGATAAA
Statistics
Matches: 145, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 136 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:92769001 original size:15 final size:15
Alignment explanation
Indices: 92768981--92769010 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
92768971 GTGAAGAGAA
92768981 ATATGTGAAATAATG
1 ATATGTGAAATAATG
92768996 ATATGTGAAATAATG
1 ATATGTGAAATAATG
92769011 TACAGATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
ATATGTGAAATAATG
Found at i:92769785 original size:26 final size:26
Alignment explanation
Indices: 92769756--92769859 Score: 163
Period size: 26 Copynumber: 4.0 Consensus size: 26
92769746 TGGTACAAAT
*
92769756 TGATAATGGGTTAGGTAAGTATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
92769782 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
92769808 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
92769834 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
92769860 GGATGGGCAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:92771501 original size:27 final size:26
Alignment explanation
Indices: 92771459--92771599 Score: 156
Period size: 27 Copynumber: 5.2 Consensus size: 26
92771449 AGTAAGCGTC
* *
92771459 CTGGTGGCTATGCCACAATTACCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
92771486 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
92771513 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
92771540 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* * *
92771567 ATAGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
92771594 CTGGTG
1 CTGGTG
92771600 ACTTCGTCAC
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
26 10 0.11
27 83 0.87
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:92771541 original size:54 final size:53
Alignment explanation
Indices: 92771459--92771599 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 53
92771449 AGTAAGCGTC
*
92771459 CTGGTGGCTATGCCACAATTACCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
*
92771513 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* * * *
92771567 ATAGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
92771600 ACTTCGTCAC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 7 0.09
54 72 0.91
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
Found at i:92781594 original size:42 final size:41
Alignment explanation
Indices: 92781533--92781654 Score: 138
Period size: 42 Copynumber: 2.9 Consensus size: 41
92781523 CAGAATTGAG
* *
92781533 TACACGGC-AGAGACACGGGCTTGTGTCTCATCCATGTGTAC
1 TACACGGCTAGA-ACACGGGCATGTGTCTCAGCCATGTGTAC
* * * *
92781574 TACACGGCCTAGAACACGGGCGTGTGTCTTAGCCGTGTGTGC
1 TACACGG-CTAGAACACGGGCATGTGTCTCAGCCATGTGTAC
* *
92781616 TACACGGTCTAGAACACGGGCATGTGTCTTAGCCGTGTG
1 TACACGG-CTAGAACACGGGCATGTGTCTCAGCCATGTG
92781655 AAGCTTGCAC
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
41 7 0.10
42 62 0.86
43 3 0.04
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (41 bp):
TACACGGCTAGAACACGGGCATGTGTCTCAGCCATGTGTAC
Found at i:92790636 original size:16 final size:17
Alignment explanation
Indices: 92790615--92790648 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
92790605 TTTTTTATTA
92790615 AAGGAAAGATT-TTTAC
1 AAGGAAAGATTGTTTAC
*
92790631 AAGGAAAGGTTGTTTAC
1 AAGGAAAGATTGTTTAC
92790648 A
1 A
92790649 GAGAGGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGGAAAGATTGTTTAC
Found at i:92795802 original size:18 final size:18
Alignment explanation
Indices: 92795775--92795809 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
92795765 GATAAATTCT
92795775 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
92795793 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
92795810 TATATTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:92797479 original size:16 final size:17
Alignment explanation
Indices: 92797448--92797481 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
92797438 GTATCCTCTC
92797448 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
92797465 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
92797481 T
1 T
92797482 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:92799345 original size:47 final size:48
Alignment explanation
Indices: 92799275--92799542 Score: 261
Period size: 46 Copynumber: 5.7 Consensus size: 48
92799265 TAAGATGTCA
* * *
92799275 ATGCCATGTCCCAGACATAGTCTTATACTGGCTCAT-ATCTC-AAGTCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCATCTCGAAGCCG
* * *
92799322 ATGCCATGTTCCAGACATGGTCTTACACTAACT-ATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCATCTCGAAGCCG
* * * * *
92799370 ATG-CATGTCCCAGACATGTTTTACACTAGCTTAT-GTCTCGAGGCCA
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAAGCCG
*
92799416 ATG-CATGTCCCAGACATGTCTTACACTAGCTC-TCGTCTC-AATGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAA-GCCG
* * * **
92799462 ATGCCATGTCCCAGACATAGTCTTACATTGGCTC-TCATAAT-GTGGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCAT-CTCGAAGCCG
92799510 ATG-CATGTCCCAGACATGTCTTACACTAGCTCA
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTCA
92799543 CAAACAAATG
Statistics
Matches: 185, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 76 0.41
47 76 0.41
48 30 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAAGCCG
Found at i:92799420 original size:46 final size:48
Alignment explanation
Indices: 92799275--92799540 Score: 232
Period size: 47 Copynumber: 5.7 Consensus size: 48
92799265 TAAGATGTCA
* * * * *
92799275 ATGCCATGTCCCAGACATAGTCTTATACTGGCTCATATCTC-AAGTCG
1 ATGCCATGTCCCAGACATAGTCTTACACTAGCTTATATCTCGAGGCCG
* * *
92799322 ATGCCATGTTCCAGACATGGTCTTACACTAAC-TATCATCTCGTA-GCCG
1 ATGCCATGTCCCAGACATAGTCTTACACTAGCTTAT-ATCTCG-AGGCCG
* * *
92799370 ATG-CATGTCCCAGACAT-GTTTTACACTAGCTTATGTCTCGAGGCCA
1 ATGCCATGTCCCAGACATAGTCTTACACTAGCTTATATCTCGAGGCCG
** * *
92799416 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATGCCG
1 ATGCCATGTCCCAGACATAGTCTTACACTAGCT-TATATCTCGAGGCCG
* * * *
92799462 ATGCCATGTCCCAGACATAGTCTTACATTGGCTCTCATA-AT-GTGGCCG
1 ATGCCATGTCCCAGACATAGTCTTACACTAGCT-T-ATATCTCGAGGCCG
92799510 ATG-CATGTCCCAGACAT-GTCTTACACTAGCT
1 ATGCCATGTCCCAGACATAGTCTTACACTAGCT
92799541 CACAAACAAA
Statistics
Matches: 182, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 75 0.41
47 77 0.42
48 27 0.15
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATAGTCTTACACTAGCTTATATCTCGAGGCCG
Found at i:92799534 original size:140 final size:141
Alignment explanation
Indices: 92799273--92799540 Score: 364
Period size: 140 Copynumber: 1.9 Consensus size: 141
92799263 GGTAAGATGT
* * * *
92799273 CAATGCCATGTCCCAGACATAGTCTTATACTGGCTCATATCTCAAGTCGATGCCATGTTCCAGAC
1 CAATGCCATGTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGAC
* * *
92799338 ATGGTCTTACACTAACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTTTTACACTAGCTTA
66 ATAGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTA
92799403 TGTCTCGAGGC
131 TGTCTCGAGGC
*
92799414 CAATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGCCGATGCCATGTCCCAG
1 CAATGCCATGTCCCAGACATAGTCTTACACTAGCTCAT-ATCTCAA-GCCGATGCCATGTCCCAG
* ** * *
92799476 ACATAGTCTTACATTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
64 ACATAGTCTTACACTAACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGC
92799540 T
128 T
92799541 CACAAACAAA
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
138 1 0.01
139 19 0.17
140 85 0.77
141 6 0.05
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (141 bp):
CAATGCCATGTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGAC
ATAGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTA
TGTCTCGAGGC
Found at i:92806421 original size:46 final size:46
Alignment explanation
Indices: 92806343--92806566 Score: 231
Period size: 46 Copynumber: 4.8 Consensus size: 46
92806333 TGGGTAAGGT
* * *
92806343 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCATA
* * * *
92806391 GCTGATGCATGTCCCAGGCATGTCTTACACTAGCT-TACGTCTCGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTC-ATA
*
92806437 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-ATA
** * * *
92806484 -CCGATGCCATGTCCCAGACATAGTCTTACACCGGCTCTTATAAT-ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCATA
92806531 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
92806567 ACAAACAAAT
Statistics
Matches: 150, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
45 1 0.01
46 77 0.51
47 44 0.29
48 27 0.18
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATA
Found at i:92806724 original size:27 final size:27
Alignment explanation
Indices: 92806692--92806751 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
92806682 TTCATGCTAT
92806692 ATTAACTCAATACAATTCAATACATAC
1 ATTAACTCAATACAATTCAATACATAC
92806719 ATTAACTCAATACAATTCAATACATAC
1 ATTAACTCAATACAATTCAATACATAC
92806746 ATTAAC
1 ATTAAC
92806752 AATGTAGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (27 bp):
ATTAACTCAATACAATTCAATACATAC
Found at i:92819970 original size:41 final size:41
Alignment explanation
Indices: 92819861--92819993 Score: 171
Period size: 41 Copynumber: 3.2 Consensus size: 41
92819851 TCGGGCTTTA
* * * * *
92819861 TGCCTAGCAAGCTTTGTGCCGGTGTATAATATCAAGCCTAT
1 TGCCTAGCAAGCTTTATGCCGGTGTATTATATTAGGCTTAT
92819902 TGCCTAGCAAGCTTTATGCCGGTGTATTATATTAGGCTTAT
1 TGCCTAGCAAGCTTTATGCCGGTGTATTATATTAGGCTTAT
* *
92819943 TGCCTAGCAGGCTCTT-TGCCGGTGTATTATACTAGGCTT-T
1 TGCCTAGCAAGCT-TTATGCCGGTGTATTATATTAGGCTTAT
92819983 ATGCCTAGCAA
1 -TGCCTAGCAA
92819994 ATTTTATGTG
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.01
41 79 0.96
42 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (41 bp):
TGCCTAGCAAGCTTTATGCCGGTGTATTATATTAGGCTTAT
Found at i:92824669 original size:27 final size:27
Alignment explanation
Indices: 92824638--92824732 Score: 113
Period size: 27 Copynumber: 3.5 Consensus size: 27
92824628 TTAGTTTACC
*
92824638 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
92824665 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
*
92824692 AAATTACCT-AAATATCCTCGATTTGTA
1 AAATTA-CTGAAATACCCTCGATTTGTA
92824719 AAATTACTGAAATA
1 AAATTACTGAAATA
92824733 AGATAGAATT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
26 5 0.09
27 48 0.84
28 4 0.07
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:92824767 original size:27 final size:27
Alignment explanation
Indices: 92824737--92824798 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
92824727 GAAATAAGAT
92824737 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
92824764 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
92824791 AAAATTAC
1 AGAATTAC
92824799 TGAAATACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:92824807 original size:27 final size:27
Alignment explanation
Indices: 92824750--92824863 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
92824740 ATTACCATTT
* * ***
92824750 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
**
92824777 TACCCTCGATTTATAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * *
92824804 TACCCTTGGTTTACAAAATTACCCAAA
1 TACCCTCGATTTATAAAATTACCAAAA
**
92824831 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
92824858 TACCCT
1 TACCCT
92824864 TGTAGGATAG
Statistics
Matches: 69, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:92824824 original size:54 final size:54
Alignment explanation
Indices: 92824750--92824865 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
92824740 ATTACCATTT
* * ** ** **
92824750 TACCCTCGATTTACAGAATTA-CCATTTTACCCTCGATTTATAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCCA-AATACCCTCGATCAATAAAATTACCAAAA
*
92824804 TACCCTTGGTTTACAAAATTACCCAAATACCCTCGATCAATAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCCAAATACCCTCGATCAATAAAATTACCAAAA
92824858 TACCCTTG
1 TACCCTTG
92824866 TAGGATAGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 49 0.94
55 3 0.06
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (54 bp):
TACCCTTGATTTACAAAATTACCCAAATACCCTCGATCAATAAAATTACCAAAA
Found at i:92824877 original size:27 final size:27
Alignment explanation
Indices: 92824847--92825042 Score: 243
Period size: 27 Copynumber: 7.3 Consensus size: 27
92824837 CGATCAATAA
*
92824847 AATTACCAAAATACCCTTGTAGGATAG
1 AATTACCAAAATACCCTTGTAGGGTAG
* * *
92824874 AATTATCAAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
* *
92824901 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
* **
92824928 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
*
92824955 AATTACCGAAATATCCC-TGTAGGGTAG
1 AATTACCAAAATA-CCCTTGTAGGGTAG
* *
92824982 AATTACTAAAATACCCTTGTAGGGTGG
1 AATTACCAAAATACCCTTGTAGGGTAG
* *
92825009 AATTACCAAGATA-CCTTGTAGGGTAA
1 AATTACCAAAATACCCTTGTAGGGTAG
92825035 AATTACCA
1 AATTACCA
92825043 TTTTTCCCCT
Statistics
Matches: 148, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
26 22 0.15
27 123 0.83
28 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGTAGGGTAG
Found at i:92824878 original size:54 final size:53
Alignment explanation
Indices: 92824820--92824997 Score: 135
Period size: 54 Copynumber: 3.3 Consensus size: 53
92824810 TGGTTTACAA
* *
92824820 AATTACCCAAATACCCTCGATCA-ATAAAATTACCAAAATACCCTTGTAGGATAG
1 AATTACCAAAATACCC-CGAT-AGATAAAATTACCAAAATACCCCTGTAGGATAG
* * * * * *
92824874 AATTATCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCGATA-GATAAAATTACCAAAATACCCCTGTAGGATAG
* ** * * * * * *
92824928 AATTATCGCAATACCCTTG-TAGGGTAGAATTACCGAAATATCCCTGTAGGGTAG
1 AATTACCAAAATACCC-CGATA-GATAAAATTACCAAAATACCCCTGTAGGATAG
*
92824982 AATTACTAAAATACCC
1 AATTACCAAAATACCC
92824998 TTGTAGGGTG
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
52 1 0.01
53 3 0.03
54 100 0.96
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (53 bp):
AATTACCAAAATACCCCGATAGATAAAATTACCAAAATACCCCTGTAGGATAG
Found at i:92824905 original size:81 final size:81
Alignment explanation
Indices: 92824820--92825042 Score: 204
Period size: 81 Copynumber: 2.8 Consensus size: 81
92824810 TGGTTTACAA
* *
92824820 AATTACCCAAATACCCTC-GATCA-ATAAAATTACCAAAATACCCTTGTAGGATAGAATTATCAA
1 AATTACCAAAATACCCTCTG-T-AGATAAAATTACCAAAATACCCTTGTAGGATAGAATTACCAA
92824883 AATACCCCTATAGGGTAG
64 AATACCCCTATAGGGTAG
* * * * ** * *
92824901 AATTACCGAAATACCC-CTGTAGGGTAGAATTATCGCAATACCCTTGTAGGGTAGAATTACCGAA
1 AATTACCAAAATACCCTCTGTA-GATAAAATTACCAAAATACCCTTGTAGGATAGAATTACCAAA
* *
92824965 ATATCCCTGTAGGGTAG
65 ATACCCCTATAGGGTAG
* * ** * * *
92824982 AATTACTAAAATACCCT-TGTAGGGTGGAATTACCAAGATA-CCTTGTAGGGTAAAATTACCA
1 AATTACCAAAATACCCTCTGTA-GATAAAATTACCAAAATACCCTTGTAGGATAGAATTACCA
92825043 TTTTTCCCCT
Statistics
Matches: 118, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
79 1 0.01
80 21 0.18
81 96 0.81
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (81 bp):
AATTACCAAAATACCCTCTGTAGATAAAATTACCAAAATACCCTTGTAGGATAGAATTACCAAAA
TACCCCTATAGGGTAG
Found at i:92825528 original size:22 final size:21
Alignment explanation
Indices: 92825471--92825532 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
92825461 AAGCCTTCTA
* *
92825471 ATTATGGCTTTGTGTCAACCT
1 ATTATGGCTCTGTGCCAACCT
* *
92825492 ACATATTGCTCTGTGCCAACCT
1 A-TTATGGCTCTGTGCCAACCT
*
92825514 GATTATGGCTGTGTGCCAA
1 -ATTATGGCTCTGTGCCAA
92825533 ACGTATTTGC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (21 bp):
ATTATGGCTCTGTGCCAACCT
Found at i:92825726 original size:26 final size:27
Alignment explanation
Indices: 92825697--92825763 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
92825687 TAAGTGGCTT
*
92825697 TGCCACATTATCTGT-TCTGGTGGA-TC
1 TGCCACAATATCTGTATCTGGT-GACTC
*
92825723 TGCCACAATCTCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
*
92825750 TGTCACAATATCTG
1 TGCCACAATATCTG
92825764 ATAACTGAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 15 0.43
27 20 0.57
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:92825938 original size:6 final size:6
Alignment explanation
Indices: 92825923--92825988 Score: 73
Period size: 6 Copynumber: 10.8 Consensus size: 6
92825913 ATTCTGTTAC
* *
92825923 CTGATA CTGATT CTGATT CTGATT CTG-TCAC CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
92825972 CTGATT CT-AGTT CTGAT
1 CTGATT CTGA-TT CTGAT
92825989 AATGTTTCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
5 2 0.04
6 45 0.87
7 4 0.08
8 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (6 bp):
CTGATT
Found at i:92825956 original size:31 final size:31
Alignment explanation
Indices: 92825913--92825979 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
92825903 CTGATTTTTT
*
92825913 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTCACCTGATACTGATTCTGATTCTG
*
92825944 ATTCTGTCACCTGATTCTGATTCTGATTCTG
1 ATTCTGTCACCTGATACTGATTCTGATTCTG
92825975 ATTCT
1 ATTCT
92825980 AGTTCTGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (31 bp):
ATTCTGTCACCTGATACTGATTCTGATTCTG
Found at i:92826333 original size:7 final size:7
Alignment explanation
Indices: 92826321--92826345 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
92826311 AATTTTTTGG
92826321 ATTTGAA
1 ATTTGAA
92826328 ATTTGAA
1 ATTTGAA
92826335 ATTTGAA
1 ATTTGAA
92826342 ATTT
1 ATTT
92826346 TACTTATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (7 bp):
ATTTGAA
Found at i:92828564 original size:32 final size:32
Alignment explanation
Indices: 92828524--92828601 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
92828514 AAAAGTTGTG
* *
92828524 TGGG-CACACGGGCAAGGCAAATCTGGCTGTC
1 TGGGCCACACGGGCAAGGCAAATCTAGCCGTC
* * *
92828555 TGGGCCACACAGGCAAGGCCAATCTAGCCGTG
1 TGGGCCACACGGGCAAGGCAAATCTAGCCGTC
92828587 TGGGCCACACGGGCA
1 TGGGCCACACGGGCA
92828602 TGTAAGCCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 4 0.10
32 36 0.90
ACGTcount: A:0.23, C:0.29, G:0.35, T:0.13
Consensus pattern (32 bp):
TGGGCCACACGGGCAAGGCAAATCTAGCCGTC
Found at i:92836882 original size:43 final size:43
Alignment explanation
Indices: 92836820--92836941 Score: 183
Period size: 43 Copynumber: 2.8 Consensus size: 43
92836810 ACGGTATTAT
*
92836820 TCGGGCCTTCGAACCTAGCAGGCTATAATGCCGGTGAGTTAATA
1 TCGGG-CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
92836864 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
* * * *
92836907 TCAGGCTTCGAGCCTAGTAGGC-CTCATGCCGGTGA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
92836942 ATGAGTTCAA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 11 0.15
43 57 0.78
44 5 0.07
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.25
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
Found at i:92839887 original size:29 final size:30
Alignment explanation
Indices: 92839840--92839907 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
92839830 TGGCCCAAGA
* * *
92839840 GTAAATACTCAAAATTTGAGGGATTAA-AAT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAAT
* *
92839870 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAAT
92839900 GTAAATAT
1 GTAAATAT
92839908 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.29
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAAT
Found at i:92842406 original size:46 final size:46
Alignment explanation
Indices: 92842339--92842845 Score: 703
Period size: 46 Copynumber: 11.0 Consensus size: 46
92842329 GCTTTCTGAA
*
92842339 ATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
92842385 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
92842431 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
92842477 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
92842523 ATAAAATGTGTAAGACCATGGTTGAAAGAAACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
92842569 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAATAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
92842615 ATAAAATGTGTTGAAAGA-CACTGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTG-T--AAGACCA-TGGTTGAAAGATACCATGGCAACATGAT
* * *
92842664 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAATAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* ** * *
92842710 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
92842756 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
92842802 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
92842846 TCAAAGATAA
Statistics
Matches: 414, Mismatches: 41, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
45 1 0.00
46 369 0.89
47 3 0.01
48 3 0.01
49 38 0.09
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:92843147 original size:16 final size:17
Alignment explanation
Indices: 92843126--92843158 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
92843116 ATGATGGAGC
92843126 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
92843142 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
92843159 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:92858800 original size:19 final size:19
Alignment explanation
Indices: 92858773--92858809 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
92858763 TTATATATTC
92858773 TTTAGAATTTTTTAAAAAA
1 TTTAGAATTTTTTAAAAAA
*
92858792 TTTATAATTTTTTAAAAA
1 TTTAGAATTTTTTAAAAA
92858810 TATAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTAGAATTTTTTAAAAAA
Found at i:92858808 original size:18 final size:18
Alignment explanation
Indices: 92858773--92858819 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
92858763 TTATATATTC
92858773 TTTAGAATTTTTTAAAAAA
1 TTTA-AATTTTTTAAAAAA
92858792 TTTATAATTTTTT-AAAAA
1 TTTA-AATTTTTTAAAAAA
*
92858810 TATAAATTTT
1 TTTAAATTTT
92858820 AGAATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 6 0.23
18 8 0.31
19 12 0.46
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTAAATTTTTTAAAAAA
Found at i:92858833 original size:18 final size:19
Alignment explanation
Indices: 92858810--92858846 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
92858800 TTTTTAAAAA
92858810 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
92858828 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
92858847 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:92861812 original size:23 final size:24
Alignment explanation
Indices: 92861786--92861835 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
92861776 TATAAAAAGT
*
92861786 AATAATATTAATATATTA-TTTTA
1 AATAATAATAATATATTACTTTTA
* * *
92861809 AATAGTAATATTATTTTACTTTTA
1 AATAATAATAATATATTACTTTTA
92861833 AAT
1 AAT
92861836 GTTAATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
AATAATAATAATATATTACTTTTA
Found at i:92865798 original size:8 final size:8
Alignment explanation
Indices: 92865787--92865834 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 8
92865777 AAAATTAGAA
92865787 AAAAATAT
1 AAAAATAT
*
92865795 AAAAATCGT
1 AAAAAT-AT
92865804 AAAAATTAT
1 AAAAA-TAT
92865813 AAAATATAT
1 AAAA-ATAT
*
92865822 AGAAATAT
1 AAAAATAT
92865830 AAAAA
1 AAAAA
92865835 AATTATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 14 0.42
9 17 0.52
10 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (8 bp):
AAAAATAT
Found at i:92865865 original size:21 final size:21
Alignment explanation
Indices: 92865841--92865885 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
92865831 AAAAAATTAT
* *
92865841 AAAATTTTATAAAATCGT-AAG
1 AAAATTATACAAAAT-GTAAAG
92865862 AAAATTATACAAAATGTAAAG
1 AAAATTATACAAAATGTAAAG
92865883 AAA
1 AAA
92865886 TATAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTATACAAAATGTAAAG
Found at i:92865866 original size:29 final size:27
Alignment explanation
Indices: 92865788--92865870 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 27
92865778 AAATTAGAAA
92865788 AAAATATA-AAAATCGT-AAAAATTAT
1 AAAATATATAAAATCGTAAAAAATTAT
*
92865813 AAAATATATAGAAAT-ATAAAAAAATTAT
1 AAAATATATA-AAATCGT-AAAAAATTAT
*
92865841 AAAATTTTATAAAATCGTAAGAAAATTAT
1 AAAA-TATATAAAATCGTAA-AAAATTAT
92865870 A
1 A
92865871 CAAAATGTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
25 8 0.17
26 2 0.04
27 4 0.08
28 19 0.40
29 15 0.31
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (27 bp):
AAAATATATAAAATCGTAAAAAATTAT
Found at i:92866236 original size:25 final size:25
Alignment explanation
Indices: 92866147--92866244 Score: 119
Period size: 25 Copynumber: 3.9 Consensus size: 25
92866137 TTCTTTAACG
* *
92866147 ATTTTTATAAAAAATATAAT-TTCTA-
1 ATTTTTAT-TAAAATTTAATATT-TAT
* *
92866172 ATTTTTAATAAAATTTAATTTTTAT
1 ATTTTTATTAAAATTTAATATTTAT
*
92866197 ATTTTTATTACAATTTAATATTTAT
1 ATTTTTATTAAAATTTAATATTTAT
92866222 ATTTTTATTAAAATTTAATATTT
1 ATTTTTATTAAAATTTAATATTT
92866245 TTTCTAAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
24 11 0.17
25 53 0.83
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTTTATTAAAATTTAATATTTAT
Found at i:92866242 original size:19 final size:18
Alignment explanation
Indices: 92866210--92866266 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
92866200 TTTATTACAA
*
92866210 TTTAATATTT-ATATTTT
1 TTTAAAATTTAATATTTT
92866227 TATTAAAATTTAATATTTT
1 T-TTAAAATTTAATATTTT
*
92866246 TTCTAAAATTTATTATTTT
1 TT-TAAAATTTAATATTTT
92866265 TT
1 TT
92866267 ATAATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 1 0.03
18 9 0.26
19 25 0.71
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTAAAATTTAATATTTT
Found at i:92867391 original size:21 final size:21
Alignment explanation
Indices: 92867350--92867389 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
92867340 GGGGTATATA
92867350 ATTAATATATAATAAAATTTC
1 ATTAATATATAATAAAATTTC
*
92867371 ATTAATTTAT-ATAAAATTT
1 ATTAATATATAATAAAATTT
92867390 TCTTTGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTAATATATAATAAAATTTC
Found at i:92875104 original size:37 final size:37
Alignment explanation
Indices: 92875054--92875132 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
92875044 TTATTACGAA
* *
92875054 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
92875091 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
92875128 GTCTT
1 GTCTT
92875133 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:92875320 original size:47 final size:47
Alignment explanation
Indices: 92875251--92875493 Score: 396
Period size: 47 Copynumber: 5.1 Consensus size: 47
92875241 CCCTTCGGGA
* * * *
92875251 CTTATCACATTTATGCACTTTCACATCCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92875298 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92875345 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92875394 CTTATCACACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92875443 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92875490 CTTA
1 CTTA
92875494 CTATCATTTC
Statistics
Matches: 186, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
47 96 0.52
49 87 0.47
51 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:92875378 original size:49 final size:48
Alignment explanation
Indices: 92875251--92875493 Score: 393
Period size: 49 Copynumber: 5.1 Consensus size: 48
92875241 CCCTTCGGGA
* * * *
92875251 CTTATCAC-ATTTATGCACTTTCACATCCATCACATCAGCCATTAGGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92875298 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
92875345 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92875394 CTTATCACACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92875443 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92875490 CTTA
1 CTTA
92875494 CTATCATTTC
Statistics
Matches: 187, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 93 0.50
49 94 0.50
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (48 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:92881051 original size:58 final size:58
Alignment explanation
Indices: 92880958--92881101 Score: 171
Period size: 58 Copynumber: 2.4 Consensus size: 58
92880948 ATATACTTCA
* * * *
92880958 ATGCTCACACAGAGCTACGGTAGTCTACAATTTATGCGGAATTACTACCAATACATCC
1 ATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCAGAATTACTACCAATACATCC
* * *
92881016 ATGCTTACACAGAGCTACGGTAGCCCACAACTTATGCAGAATTGCTACCAATCACTTACCTCG
1 ATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCAGAATTACTACCAAT-AC--A--TCC
*
92881079 ATGCTCACAAAGAGCTACGGTAG
1 ATGCTCACACAGAGCTACGGTAG
92881102 TTCACAACAT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
58 46 0.64
59 2 0.03
61 1 0.01
63 23 0.32
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (58 bp):
ATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCAGAATTACTACCAATACATCC
Found at i:92881874 original size:36 final size:36
Alignment explanation
Indices: 92881834--92881907 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
92881824 AACCATGTCC
92881834 AAAAATCTACTAACTTTCAAAATTTCAACATATACT
1 AAAAATCTACTAACTTTCAAAATTTCAACATATACT
92881870 AAAAATCTACTAACTTTCAAAATTTCAACATATACT
1 AAAAATCTACTAACTTTCAAAATTTCAACATATACT
92881906 AA
1 AA
92881908 GTAGTATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (36 bp):
AAAAATCTACTAACTTTCAAAATTTCAACATATACT
Found at i:92882129 original size:8 final size:8
Alignment explanation
Indices: 92882090--92882152 Score: 83
Period size: 8 Copynumber: 7.8 Consensus size: 8
92882080 TGTTTTTCAC
92882090 ATATATATA
1 ATATA-ATA
92882099 ATATAAT-
1 ATATAATA
92882106 ATATATATA
1 ATATA-ATA
*
92882115 ATGTAATA
1 ATATAATA
*
92882123 ATTTAATA
1 ATATAATA
92882131 ATATAATA
1 ATATAATA
92882139 ATATAATA
1 ATATAATA
92882147 ATATAA
1 ATATAA
92882153 ATTGATATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
7 5 0.10
8 35 0.71
9 9 0.18
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (8 bp):
ATATAATA
Found at i:92885899 original size:21 final size:21
Alignment explanation
Indices: 92885875--92885981 Score: 81
Period size: 21 Copynumber: 5.1 Consensus size: 21
92885865 TCTCACGATC
*
92885875 TTCTGTTTAACTCATATGAGT
1 TTCTGTTTAACTCTTATGAGT
* * *
92885896 TTCTGTTCAGCTCTTTTGAGT
1 TTCTGTTTAACTCTTATGAGT
* *
92885917 TTCTATTTAAC-CTTGATGGGT
1 TTCTGTTTAACTCTT-ATGAGT
* * * *
92885938 TTCTGTTCAGCTCTTTTGAGC
1 TTCTGTTTAACTCTTATGAGT
* * *
92885959 TTCTATTTAACCCTTATGGGT
1 TTCTGTTTAACTCTTATGAGT
92885980 TT
1 TT
92885982 TCATTCAGCT
Statistics
Matches: 62, Mismatches: 22, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
20 3 0.05
21 56 0.90
22 3 0.05
ACGTcount: A:0.16, C:0.18, G:0.17, T:0.50
Consensus pattern (21 bp):
TTCTGTTTAACTCTTATGAGT
Done.